Multiple sequence alignment - TraesCS5D01G087400

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS5D01G087400 chr5D 100.000 1513 0 0 1 1513 92463098 92464610 0.000000e+00 2795.0
1 TraesCS5D01G087400 chr5D 100.000 221 0 0 2224 2444 92465321 92465541 2.260000e-110 409.0
2 TraesCS5D01G087400 chr5D 92.857 42 3 0 221 262 376654375 376654416 7.300000e-06 62.1
3 TraesCS5D01G087400 chr5A 94.654 636 32 2 877 1510 86181196 86181831 0.000000e+00 985.0
4 TraesCS5D01G087400 chr5A 90.361 166 12 3 1 162 86180517 86180682 5.290000e-52 215.0
5 TraesCS5D01G087400 chr5A 81.435 237 21 15 286 503 86180677 86180909 3.230000e-39 172.0
6 TraesCS5D01G087400 chr5A 85.938 128 8 5 689 816 86180972 86181089 7.090000e-26 128.0
7 TraesCS5D01G087400 chr5B 90.224 491 26 12 1037 1510 98518736 98519221 2.670000e-174 621.0
8 TraesCS5D01G087400 chr5B 94.118 221 13 0 2224 2444 98520191 98520411 1.080000e-88 337.0
9 TraesCS5D01G087400 chr5B 85.915 71 5 3 218 287 439723251 439723185 1.210000e-08 71.3
10 TraesCS5D01G087400 chr5B 95.238 42 2 0 221 262 449743931 449743972 1.570000e-07 67.6
11 TraesCS5D01G087400 chr5B 94.595 37 2 0 227 263 536836148 536836112 9.440000e-05 58.4
12 TraesCS5D01G087400 chr7D 84.565 460 55 15 1049 1504 562148061 562148508 2.230000e-120 442.0
13 TraesCS5D01G087400 chr7D 84.233 463 49 20 1061 1510 562390342 562389891 1.740000e-116 429.0
14 TraesCS5D01G087400 chr7D 83.871 465 56 15 1055 1510 562426167 562425713 2.250000e-115 425.0
15 TraesCS5D01G087400 chr7D 92.760 221 16 0 2224 2444 562148422 562148642 1.090000e-83 320.0
16 TraesCS5D01G087400 chr7D 92.760 221 16 0 2224 2444 562148878 562149098 1.090000e-83 320.0
17 TraesCS5D01G087400 chr7A 84.989 453 49 16 1059 1504 647933627 647934067 2.230000e-120 442.0
18 TraesCS5D01G087400 chr7A 84.579 428 47 19 1097 1513 647314975 647315394 8.140000e-110 407.0
19 TraesCS5D01G087400 chr7A 92.760 221 16 0 2224 2444 647306475 647306695 1.090000e-83 320.0
20 TraesCS5D01G087400 chr7A 92.760 221 16 0 2224 2444 647306931 647307151 1.090000e-83 320.0
21 TraesCS5D01G087400 chr7B 82.645 484 55 23 1034 1504 612005969 612006436 3.790000e-108 401.0
22 TraesCS5D01G087400 chr7B 92.857 42 3 0 221 262 651450502 651450543 7.300000e-06 62.1
23 TraesCS5D01G087400 chr7B 92.683 41 3 0 222 262 483866419 483866459 2.620000e-05 60.2
24 TraesCS5D01G087400 chrUn 89.404 302 28 2 1203 1504 20922678 20922975 6.380000e-101 377.0
25 TraesCS5D01G087400 chr6A 93.213 221 15 0 2224 2444 55709716 55709496 2.340000e-85 326.0
26 TraesCS5D01G087400 chr2D 93.213 221 15 0 2224 2444 520583215 520583435 2.340000e-85 326.0
27 TraesCS5D01G087400 chr2D 97.222 36 1 0 227 262 35210492 35210457 7.300000e-06 62.1
28 TraesCS5D01G087400 chr6B 92.308 221 17 0 2224 2444 92532419 92532639 5.070000e-82 315.0
29 TraesCS5D01G087400 chr6B 92.308 221 17 0 2224 2444 98992760 98992540 5.070000e-82 315.0
30 TraesCS5D01G087400 chr1D 92.857 42 3 0 221 262 372837028 372837069 7.300000e-06 62.1
31 TraesCS5D01G087400 chr1B 90.698 43 4 0 221 263 637479163 637479205 9.440000e-05 58.4


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5D01G087400 chr5D 92463098 92465541 2443 False 1602.000000 2795 100.000000 1 2444 2 chr5D.!!$F2 2443
1 TraesCS5D01G087400 chr5A 86180517 86181831 1314 False 375.000000 985 88.097000 1 1510 4 chr5A.!!$F1 1509
2 TraesCS5D01G087400 chr5B 98518736 98520411 1675 False 479.000000 621 92.171000 1037 2444 2 chr5B.!!$F2 1407
3 TraesCS5D01G087400 chr7D 562148061 562149098 1037 False 360.666667 442 90.028333 1049 2444 3 chr7D.!!$F1 1395
4 TraesCS5D01G087400 chr7A 647306475 647307151 676 False 320.000000 320 92.760000 2224 2444 2 chr7A.!!$F3 220

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
900 990 0.095935 CCGTTGAAGCTGAGCATTCG 59.904 55.0 7.39 3.99 0.0 3.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2247 2585 0.889638 TCACGCTCGAGGTTGAGTCT 60.89 55.0 15.58 0.0 38.28 3.24 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 26 4.931027 AGCTTATATCTAGGACGGAGGA 57.069 45.455 0.00 0.00 0.00 3.71
99 103 4.991687 AGTAACACTTCTGCTAGCTCAAAC 59.008 41.667 17.23 3.52 0.00 2.93
131 136 7.648039 AACTCTAGACCACTAAACCTATCAG 57.352 40.000 0.00 0.00 0.00 2.90
153 158 5.406780 CAGACAAGTCAACAGTAGTCATTCC 59.593 44.000 2.72 0.00 0.00 3.01
155 160 3.594603 AGTCAACAGTAGTCATTCCCG 57.405 47.619 0.00 0.00 0.00 5.14
162 167 4.253685 ACAGTAGTCATTCCCGAAACATG 58.746 43.478 0.00 0.00 0.00 3.21
163 168 3.623060 CAGTAGTCATTCCCGAAACATGG 59.377 47.826 0.00 0.00 0.00 3.66
164 169 1.463674 AGTCATTCCCGAAACATGGC 58.536 50.000 0.00 0.00 0.00 4.40
165 170 1.173043 GTCATTCCCGAAACATGGCA 58.827 50.000 0.00 0.00 0.00 4.92
166 171 1.543802 GTCATTCCCGAAACATGGCAA 59.456 47.619 0.00 0.00 0.00 4.52
167 172 2.029470 GTCATTCCCGAAACATGGCAAA 60.029 45.455 0.00 0.00 0.00 3.68
168 173 2.029470 TCATTCCCGAAACATGGCAAAC 60.029 45.455 0.00 0.00 0.00 2.93
169 174 1.403814 TTCCCGAAACATGGCAAACA 58.596 45.000 0.00 0.00 0.00 2.83
170 175 1.403814 TCCCGAAACATGGCAAACAA 58.596 45.000 0.00 0.00 0.00 2.83
171 176 1.757118 TCCCGAAACATGGCAAACAAA 59.243 42.857 0.00 0.00 0.00 2.83
172 177 2.134346 CCCGAAACATGGCAAACAAAG 58.866 47.619 0.00 0.00 0.00 2.77
173 178 2.223923 CCCGAAACATGGCAAACAAAGA 60.224 45.455 0.00 0.00 0.00 2.52
174 179 3.452474 CCGAAACATGGCAAACAAAGAA 58.548 40.909 0.00 0.00 0.00 2.52
175 180 4.057432 CCGAAACATGGCAAACAAAGAAT 58.943 39.130 0.00 0.00 0.00 2.40
176 181 5.226396 CCGAAACATGGCAAACAAAGAATA 58.774 37.500 0.00 0.00 0.00 1.75
177 182 5.694006 CCGAAACATGGCAAACAAAGAATAA 59.306 36.000 0.00 0.00 0.00 1.40
178 183 6.368516 CCGAAACATGGCAAACAAAGAATAAT 59.631 34.615 0.00 0.00 0.00 1.28
179 184 7.543868 CCGAAACATGGCAAACAAAGAATAATA 59.456 33.333 0.00 0.00 0.00 0.98
180 185 8.920665 CGAAACATGGCAAACAAAGAATAATAA 58.079 29.630 0.00 0.00 0.00 1.40
225 230 9.244292 TCTTGACATATAGTTGTGTTCTACTCT 57.756 33.333 0.00 0.00 32.55 3.24
226 231 9.509855 CTTGACATATAGTTGTGTTCTACTCTC 57.490 37.037 0.00 0.00 32.55 3.20
227 232 8.809468 TGACATATAGTTGTGTTCTACTCTCT 57.191 34.615 0.00 0.00 32.55 3.10
228 233 8.894731 TGACATATAGTTGTGTTCTACTCTCTC 58.105 37.037 0.00 0.00 32.55 3.20
229 234 9.116067 GACATATAGTTGTGTTCTACTCTCTCT 57.884 37.037 0.00 0.00 32.55 3.10
235 240 8.410673 AGTTGTGTTCTACTCTCTCTATTTCA 57.589 34.615 0.00 0.00 0.00 2.69
236 241 8.861086 AGTTGTGTTCTACTCTCTCTATTTCAA 58.139 33.333 0.00 0.00 0.00 2.69
237 242 9.477484 GTTGTGTTCTACTCTCTCTATTTCAAA 57.523 33.333 0.00 0.00 0.00 2.69
250 255 9.831737 CTCTCTATTTCAAAATAAGTGTTGTGG 57.168 33.333 0.00 0.00 31.03 4.17
251 256 9.349713 TCTCTATTTCAAAATAAGTGTTGTGGT 57.650 29.630 0.00 0.00 31.03 4.16
252 257 9.965824 CTCTATTTCAAAATAAGTGTTGTGGTT 57.034 29.630 0.00 0.00 31.03 3.67
257 262 9.930693 TTTCAAAATAAGTGTTGTGGTTTTAGT 57.069 25.926 0.00 0.00 0.00 2.24
258 263 9.930693 TTCAAAATAAGTGTTGTGGTTTTAGTT 57.069 25.926 0.00 0.00 0.00 2.24
259 264 9.575783 TCAAAATAAGTGTTGTGGTTTTAGTTC 57.424 29.630 0.00 0.00 0.00 3.01
260 265 9.360093 CAAAATAAGTGTTGTGGTTTTAGTTCA 57.640 29.630 0.00 0.00 0.00 3.18
261 266 9.930693 AAAATAAGTGTTGTGGTTTTAGTTCAA 57.069 25.926 0.00 0.00 0.00 2.69
262 267 9.581099 AAATAAGTGTTGTGGTTTTAGTTCAAG 57.419 29.630 0.00 0.00 0.00 3.02
263 268 5.576447 AGTGTTGTGGTTTTAGTTCAAGG 57.424 39.130 0.00 0.00 0.00 3.61
264 269 5.014202 AGTGTTGTGGTTTTAGTTCAAGGT 58.986 37.500 0.00 0.00 0.00 3.50
265 270 6.181908 AGTGTTGTGGTTTTAGTTCAAGGTA 58.818 36.000 0.00 0.00 0.00 3.08
266 271 6.094464 AGTGTTGTGGTTTTAGTTCAAGGTAC 59.906 38.462 0.00 0.00 0.00 3.34
267 272 5.944599 TGTTGTGGTTTTAGTTCAAGGTACA 59.055 36.000 0.00 0.00 0.00 2.90
268 273 6.603997 TGTTGTGGTTTTAGTTCAAGGTACAT 59.396 34.615 0.00 0.00 0.00 2.29
269 274 7.122948 TGTTGTGGTTTTAGTTCAAGGTACATT 59.877 33.333 0.00 0.00 0.00 2.71
270 275 7.648039 TGTGGTTTTAGTTCAAGGTACATTT 57.352 32.000 0.00 0.00 0.00 2.32
271 276 8.068892 TGTGGTTTTAGTTCAAGGTACATTTT 57.931 30.769 0.00 0.00 0.00 1.82
272 277 8.532819 TGTGGTTTTAGTTCAAGGTACATTTTT 58.467 29.630 0.00 0.00 0.00 1.94
352 357 6.540189 ACGTTGGATATCCTTTGAGATTTCAG 59.460 38.462 22.35 2.81 33.91 3.02
378 383 4.122776 AGCCGTGAGACAATGATGTTATC 58.877 43.478 0.00 0.00 40.74 1.75
384 389 9.476202 CCGTGAGACAATGATGTTATCTATTAA 57.524 33.333 0.00 0.00 40.74 1.40
413 435 5.163713 GCTTCAAGGATTAGGTACAGCTTTG 60.164 44.000 0.00 0.00 0.00 2.77
419 441 4.383770 GGATTAGGTACAGCTTTGCCAGTA 60.384 45.833 9.80 0.00 0.00 2.74
422 444 3.412386 AGGTACAGCTTTGCCAGTAAAG 58.588 45.455 9.80 4.10 39.95 1.85
503 527 3.062763 TCGAAAAGAGCTCTGCTTTGAG 58.937 45.455 19.06 10.98 39.88 3.02
504 528 2.805099 CGAAAAGAGCTCTGCTTTGAGT 59.195 45.455 19.06 0.00 39.88 3.41
505 529 3.249559 CGAAAAGAGCTCTGCTTTGAGTT 59.750 43.478 19.06 1.63 39.88 3.01
506 530 4.449068 CGAAAAGAGCTCTGCTTTGAGTTA 59.551 41.667 19.06 0.00 39.88 2.24
507 531 5.050091 CGAAAAGAGCTCTGCTTTGAGTTAA 60.050 40.000 19.06 0.00 39.88 2.01
508 532 6.348050 CGAAAAGAGCTCTGCTTTGAGTTAAT 60.348 38.462 19.06 0.00 39.88 1.40
509 533 5.876612 AAGAGCTCTGCTTTGAGTTAATG 57.123 39.130 19.06 0.00 39.88 1.90
510 534 5.157940 AGAGCTCTGCTTTGAGTTAATGA 57.842 39.130 17.42 0.00 39.88 2.57
511 535 5.555017 AGAGCTCTGCTTTGAGTTAATGAA 58.445 37.500 17.42 0.00 39.88 2.57
512 536 6.000219 AGAGCTCTGCTTTGAGTTAATGAAA 59.000 36.000 17.42 0.00 39.88 2.69
513 537 6.006759 AGCTCTGCTTTGAGTTAATGAAAC 57.993 37.500 0.00 0.00 33.89 2.78
514 538 5.048434 AGCTCTGCTTTGAGTTAATGAAACC 60.048 40.000 0.00 0.00 35.24 3.27
515 539 5.278463 GCTCTGCTTTGAGTTAATGAAACCA 60.278 40.000 0.00 0.00 39.03 3.67
516 540 6.571150 GCTCTGCTTTGAGTTAATGAAACCAT 60.571 38.462 0.00 0.00 39.03 3.55
517 541 6.680810 TCTGCTTTGAGTTAATGAAACCATG 58.319 36.000 0.00 0.00 39.03 3.66
518 542 5.229423 TGCTTTGAGTTAATGAAACCATGC 58.771 37.500 0.00 0.00 39.03 4.06
519 543 5.010922 TGCTTTGAGTTAATGAAACCATGCT 59.989 36.000 0.00 0.00 39.03 3.79
520 544 5.346822 GCTTTGAGTTAATGAAACCATGCTG 59.653 40.000 0.00 0.00 39.03 4.41
521 545 5.389859 TTGAGTTAATGAAACCATGCTGG 57.610 39.130 1.16 1.16 45.02 4.85
522 546 3.763360 TGAGTTAATGAAACCATGCTGGG 59.237 43.478 7.06 0.29 43.37 4.45
541 565 5.700832 GCTGGGAATTACATCGATCAACATA 59.299 40.000 0.00 0.00 0.00 2.29
578 606 6.542370 ACAAATACACAGTGCTTACAGAAACT 59.458 34.615 0.00 0.00 0.00 2.66
593 621 5.929697 CAGAAACTCTGCTAACATTGTCA 57.070 39.130 0.00 0.00 37.72 3.58
594 622 6.304356 CAGAAACTCTGCTAACATTGTCAA 57.696 37.500 0.00 0.00 37.72 3.18
595 623 6.728200 CAGAAACTCTGCTAACATTGTCAAA 58.272 36.000 0.00 0.00 37.72 2.69
596 624 6.854892 CAGAAACTCTGCTAACATTGTCAAAG 59.145 38.462 0.00 0.00 37.72 2.77
597 625 4.756084 ACTCTGCTAACATTGTCAAAGC 57.244 40.909 10.29 10.29 0.00 3.51
598 626 3.503748 ACTCTGCTAACATTGTCAAAGCC 59.496 43.478 13.18 1.37 32.14 4.35
599 627 3.485394 TCTGCTAACATTGTCAAAGCCA 58.515 40.909 13.18 4.62 32.14 4.75
600 628 4.081406 TCTGCTAACATTGTCAAAGCCAT 58.919 39.130 13.18 0.00 32.14 4.40
601 629 4.156556 TCTGCTAACATTGTCAAAGCCATC 59.843 41.667 13.18 0.00 32.14 3.51
602 630 3.825585 TGCTAACATTGTCAAAGCCATCA 59.174 39.130 13.18 0.00 32.14 3.07
603 631 4.463539 TGCTAACATTGTCAAAGCCATCAT 59.536 37.500 13.18 0.00 32.14 2.45
604 632 5.039333 GCTAACATTGTCAAAGCCATCATC 58.961 41.667 7.25 0.00 0.00 2.92
605 633 5.163581 GCTAACATTGTCAAAGCCATCATCT 60.164 40.000 7.25 0.00 0.00 2.90
606 634 6.038603 GCTAACATTGTCAAAGCCATCATCTA 59.961 38.462 7.25 0.00 0.00 1.98
607 635 5.824904 ACATTGTCAAAGCCATCATCTAC 57.175 39.130 0.00 0.00 0.00 2.59
608 636 4.641989 ACATTGTCAAAGCCATCATCTACC 59.358 41.667 0.00 0.00 0.00 3.18
609 637 2.905075 TGTCAAAGCCATCATCTACCG 58.095 47.619 0.00 0.00 0.00 4.02
610 638 2.213499 GTCAAAGCCATCATCTACCGG 58.787 52.381 0.00 0.00 0.00 5.28
611 639 1.837439 TCAAAGCCATCATCTACCGGT 59.163 47.619 13.98 13.98 0.00 5.28
612 640 1.942657 CAAAGCCATCATCTACCGGTG 59.057 52.381 19.93 7.59 0.00 4.94
613 641 0.179045 AAGCCATCATCTACCGGTGC 60.179 55.000 19.93 9.52 0.00 5.01
614 642 1.146041 GCCATCATCTACCGGTGCA 59.854 57.895 19.93 2.98 0.00 4.57
615 643 0.463654 GCCATCATCTACCGGTGCAA 60.464 55.000 19.93 2.03 0.00 4.08
616 644 1.299541 CCATCATCTACCGGTGCAAC 58.700 55.000 19.93 0.00 0.00 4.17
617 645 1.406751 CCATCATCTACCGGTGCAACA 60.407 52.381 19.93 0.00 39.98 3.33
618 646 2.564771 CATCATCTACCGGTGCAACAT 58.435 47.619 19.93 0.32 39.98 2.71
619 647 2.309528 TCATCTACCGGTGCAACATC 57.690 50.000 19.93 0.00 39.98 3.06
620 648 1.552792 TCATCTACCGGTGCAACATCA 59.447 47.619 19.93 0.00 39.98 3.07
621 649 1.665679 CATCTACCGGTGCAACATCAC 59.334 52.381 19.93 0.00 39.98 3.06
631 659 3.059166 GTGCAACATCACCAATGAAACC 58.941 45.455 0.00 0.00 38.69 3.27
632 660 2.964464 TGCAACATCACCAATGAAACCT 59.036 40.909 0.00 0.00 38.69 3.50
633 661 3.387374 TGCAACATCACCAATGAAACCTT 59.613 39.130 0.00 0.00 38.69 3.50
634 662 3.989817 GCAACATCACCAATGAAACCTTC 59.010 43.478 0.00 0.00 38.69 3.46
635 663 4.262164 GCAACATCACCAATGAAACCTTCT 60.262 41.667 0.00 0.00 38.69 2.85
636 664 5.048083 GCAACATCACCAATGAAACCTTCTA 60.048 40.000 0.00 0.00 38.69 2.10
637 665 6.615088 CAACATCACCAATGAAACCTTCTAG 58.385 40.000 0.00 0.00 38.69 2.43
638 666 6.126863 ACATCACCAATGAAACCTTCTAGA 57.873 37.500 0.00 0.00 38.69 2.43
639 667 6.176183 ACATCACCAATGAAACCTTCTAGAG 58.824 40.000 0.00 0.00 38.69 2.43
640 668 4.579869 TCACCAATGAAACCTTCTAGAGC 58.420 43.478 0.00 0.00 0.00 4.09
641 669 3.691609 CACCAATGAAACCTTCTAGAGCC 59.308 47.826 0.00 0.00 0.00 4.70
642 670 2.939103 CCAATGAAACCTTCTAGAGCCG 59.061 50.000 0.00 0.00 0.00 5.52
643 671 2.317530 ATGAAACCTTCTAGAGCCGC 57.682 50.000 0.00 0.00 0.00 6.53
644 672 0.249398 TGAAACCTTCTAGAGCCGCC 59.751 55.000 0.00 0.00 0.00 6.13
645 673 0.537653 GAAACCTTCTAGAGCCGCCT 59.462 55.000 0.00 0.00 0.00 5.52
646 674 0.250513 AAACCTTCTAGAGCCGCCTG 59.749 55.000 0.00 0.00 0.00 4.85
647 675 1.617947 AACCTTCTAGAGCCGCCTGG 61.618 60.000 0.00 0.00 38.77 4.45
648 676 2.060980 CCTTCTAGAGCCGCCTGGT 61.061 63.158 0.00 0.00 37.67 4.00
649 677 1.142748 CTTCTAGAGCCGCCTGGTG 59.857 63.158 0.00 0.00 37.67 4.17
650 678 2.914777 CTTCTAGAGCCGCCTGGTGC 62.915 65.000 0.55 1.73 37.67 5.01
659 687 3.426568 GCCTGGTGCGTCAGAAGC 61.427 66.667 0.65 0.65 36.93 3.86
660 688 2.345244 CCTGGTGCGTCAGAAGCT 59.655 61.111 9.88 0.00 36.93 3.74
661 689 1.591703 CCTGGTGCGTCAGAAGCTA 59.408 57.895 9.88 0.00 36.93 3.32
662 690 0.176680 CCTGGTGCGTCAGAAGCTAT 59.823 55.000 9.88 0.00 36.93 2.97
663 691 1.284657 CTGGTGCGTCAGAAGCTATG 58.715 55.000 9.88 0.00 36.93 2.23
664 692 0.108186 TGGTGCGTCAGAAGCTATGG 60.108 55.000 9.88 0.00 35.28 2.74
665 693 0.811616 GGTGCGTCAGAAGCTATGGG 60.812 60.000 9.88 0.00 35.28 4.00
666 694 0.811616 GTGCGTCAGAAGCTATGGGG 60.812 60.000 9.88 0.00 35.28 4.96
667 695 1.264749 TGCGTCAGAAGCTATGGGGT 61.265 55.000 9.88 0.00 35.28 4.95
668 696 0.530870 GCGTCAGAAGCTATGGGGTC 60.531 60.000 0.37 0.00 0.00 4.46
669 697 0.249073 CGTCAGAAGCTATGGGGTCG 60.249 60.000 0.00 0.00 0.00 4.79
670 698 0.530870 GTCAGAAGCTATGGGGTCGC 60.531 60.000 0.00 0.00 0.00 5.19
671 699 0.687757 TCAGAAGCTATGGGGTCGCT 60.688 55.000 0.00 0.00 35.09 4.93
672 700 0.179000 CAGAAGCTATGGGGTCGCTT 59.821 55.000 0.00 0.00 45.79 4.68
673 701 1.412710 CAGAAGCTATGGGGTCGCTTA 59.587 52.381 0.00 0.00 43.42 3.09
674 702 1.689273 AGAAGCTATGGGGTCGCTTAG 59.311 52.381 0.00 4.37 43.42 2.18
675 703 1.687123 GAAGCTATGGGGTCGCTTAGA 59.313 52.381 10.60 0.00 43.42 2.10
862 890 9.627123 TTGTCTAAGATAAAAATGGGGTAGATG 57.373 33.333 0.00 0.00 0.00 2.90
864 892 7.719633 GTCTAAGATAAAAATGGGGTAGATGCA 59.280 37.037 0.00 0.00 0.00 3.96
865 893 6.715347 AAGATAAAAATGGGGTAGATGCAC 57.285 37.500 0.00 0.00 0.00 4.57
869 897 1.994885 AATGGGGTAGATGCACCGGG 61.995 60.000 6.32 0.00 39.69 5.73
870 898 3.873812 GGGGTAGATGCACCGGGG 61.874 72.222 6.32 0.84 39.69 5.73
871 899 2.766651 GGGTAGATGCACCGGGGA 60.767 66.667 8.67 0.00 39.69 4.81
874 902 1.623542 GGTAGATGCACCGGGGAACT 61.624 60.000 8.67 5.29 0.00 3.01
875 903 0.179081 GTAGATGCACCGGGGAACTC 60.179 60.000 8.67 0.00 0.00 3.01
900 990 0.095935 CCGTTGAAGCTGAGCATTCG 59.904 55.000 7.39 3.99 0.00 3.34
911 1001 4.142730 AGCTGAGCATTCGTTCAGATTTTC 60.143 41.667 7.39 0.00 45.43 2.29
953 1043 8.969260 ATAAAATGTTCTCACATCAGCTCATA 57.031 30.769 0.00 0.00 43.34 2.15
1007 1097 5.514204 CACCGAAAGAAGATCAAATGCAATC 59.486 40.000 0.00 0.00 0.00 2.67
1045 1135 4.027572 TGCAGAAGTACAAACAGCAAAC 57.972 40.909 0.00 0.00 0.00 2.93
1076 1167 4.042187 ACAAGTTCAGGGCTCACTTATTCT 59.958 41.667 0.00 0.00 0.00 2.40
1201 1310 0.460109 CACGCTGACAATCCCATCGA 60.460 55.000 0.00 0.00 0.00 3.59
1220 1330 3.132289 TCGAAGGACACAGAAAGACAACT 59.868 43.478 0.00 0.00 0.00 3.16
1438 1776 2.093306 TCACATTGTCGATGGTGTCC 57.907 50.000 5.04 0.00 40.21 4.02
1486 1824 2.261671 CCGGTGAGGGTCTTCACG 59.738 66.667 7.05 3.61 46.61 4.35
1510 1848 0.982852 TCTGCATACCACCCCTGAGG 60.983 60.000 0.00 0.00 43.78 3.86
1511 1849 2.193248 GCATACCACCCCTGAGGC 59.807 66.667 0.00 0.00 40.58 4.70
1512 1850 2.505982 CATACCACCCCTGAGGCG 59.494 66.667 0.00 0.00 40.58 5.52
2247 2585 1.614903 ACGTTGTCTATGGTGTCCGAA 59.385 47.619 0.00 0.00 0.00 4.30
2259 2597 0.596577 TGTCCGAAGACTCAACCTCG 59.403 55.000 0.00 0.00 43.91 4.63
2262 2600 0.456995 CCGAAGACTCAACCTCGAGC 60.457 60.000 6.99 0.00 36.42 5.03
2292 3920 2.261671 CCGGTGAGGGTCTTGACG 59.738 66.667 0.00 0.00 35.97 4.35
2304 3932 3.265791 GGTCTTGACGAAGATCTGCATT 58.734 45.455 0.51 0.00 40.40 3.56
2313 3941 0.745845 AGATCTGCATTCCACCACGC 60.746 55.000 0.00 0.00 0.00 5.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 7.941431 ATACATTATACTTCCTCCGTCCTAG 57.059 40.000 0.00 0.00 0.00 3.02
70 74 6.292150 AGCTAGCAGAAGTGTTACTTTCTTT 58.708 36.000 18.83 0.00 38.80 2.52
77 81 4.750098 TGTTTGAGCTAGCAGAAGTGTTAC 59.250 41.667 18.83 4.32 0.00 2.50
99 103 9.530633 GGTTTAGTGGTCTAGAGTTACATTATG 57.469 37.037 0.00 0.00 0.00 1.90
131 136 4.691216 GGGAATGACTACTGTTGACTTGTC 59.309 45.833 0.00 0.00 0.00 3.18
153 158 3.090952 TCTTTGTTTGCCATGTTTCGG 57.909 42.857 0.00 0.00 0.00 4.30
199 204 9.244292 AGAGTAGAACACAACTATATGTCAAGA 57.756 33.333 0.00 0.00 0.00 3.02
200 205 9.509855 GAGAGTAGAACACAACTATATGTCAAG 57.490 37.037 0.00 0.00 0.00 3.02
201 206 9.244292 AGAGAGTAGAACACAACTATATGTCAA 57.756 33.333 0.00 0.00 0.00 3.18
202 207 8.809468 AGAGAGTAGAACACAACTATATGTCA 57.191 34.615 0.00 0.00 0.00 3.58
203 208 9.116067 AGAGAGAGTAGAACACAACTATATGTC 57.884 37.037 0.00 0.00 0.00 3.06
209 214 9.516546 TGAAATAGAGAGAGTAGAACACAACTA 57.483 33.333 0.00 0.00 0.00 2.24
210 215 8.410673 TGAAATAGAGAGAGTAGAACACAACT 57.589 34.615 0.00 0.00 0.00 3.16
211 216 9.477484 TTTGAAATAGAGAGAGTAGAACACAAC 57.523 33.333 0.00 0.00 0.00 3.32
224 229 9.831737 CCACAACACTTATTTTGAAATAGAGAG 57.168 33.333 10.12 3.89 32.87 3.20
225 230 9.349713 ACCACAACACTTATTTTGAAATAGAGA 57.650 29.630 10.12 0.00 32.87 3.10
226 231 9.965824 AACCACAACACTTATTTTGAAATAGAG 57.034 29.630 0.00 2.06 32.87 2.43
231 236 9.930693 ACTAAAACCACAACACTTATTTTGAAA 57.069 25.926 0.00 0.00 0.00 2.69
232 237 9.930693 AACTAAAACCACAACACTTATTTTGAA 57.069 25.926 0.00 0.00 0.00 2.69
233 238 9.575783 GAACTAAAACCACAACACTTATTTTGA 57.424 29.630 0.00 0.00 0.00 2.69
234 239 9.360093 TGAACTAAAACCACAACACTTATTTTG 57.640 29.630 0.00 0.00 0.00 2.44
235 240 9.930693 TTGAACTAAAACCACAACACTTATTTT 57.069 25.926 0.00 0.00 0.00 1.82
236 241 9.581099 CTTGAACTAAAACCACAACACTTATTT 57.419 29.630 0.00 0.00 0.00 1.40
237 242 8.194769 CCTTGAACTAAAACCACAACACTTATT 58.805 33.333 0.00 0.00 0.00 1.40
238 243 7.340999 ACCTTGAACTAAAACCACAACACTTAT 59.659 33.333 0.00 0.00 0.00 1.73
239 244 6.660094 ACCTTGAACTAAAACCACAACACTTA 59.340 34.615 0.00 0.00 0.00 2.24
240 245 5.479027 ACCTTGAACTAAAACCACAACACTT 59.521 36.000 0.00 0.00 0.00 3.16
241 246 5.014202 ACCTTGAACTAAAACCACAACACT 58.986 37.500 0.00 0.00 0.00 3.55
242 247 5.319140 ACCTTGAACTAAAACCACAACAC 57.681 39.130 0.00 0.00 0.00 3.32
243 248 5.944599 TGTACCTTGAACTAAAACCACAACA 59.055 36.000 0.00 0.00 0.00 3.33
244 249 6.439675 TGTACCTTGAACTAAAACCACAAC 57.560 37.500 0.00 0.00 0.00 3.32
245 250 7.648039 AATGTACCTTGAACTAAAACCACAA 57.352 32.000 0.00 0.00 0.00 3.33
246 251 7.648039 AAATGTACCTTGAACTAAAACCACA 57.352 32.000 0.00 0.00 0.00 4.17
247 252 8.936070 AAAAATGTACCTTGAACTAAAACCAC 57.064 30.769 0.00 0.00 0.00 4.16
352 357 2.941453 TCATTGTCTCACGGCTAGAC 57.059 50.000 0.00 7.02 43.04 2.59
384 389 6.239458 GCTGTACCTAATCCTTGAAGCTATCT 60.239 42.308 0.00 0.00 0.00 1.98
385 390 5.929415 GCTGTACCTAATCCTTGAAGCTATC 59.071 44.000 0.00 0.00 0.00 2.08
387 392 4.962995 AGCTGTACCTAATCCTTGAAGCTA 59.037 41.667 0.00 0.00 36.75 3.32
389 394 4.143986 AGCTGTACCTAATCCTTGAAGC 57.856 45.455 0.00 0.00 0.00 3.86
390 395 5.163713 GCAAAGCTGTACCTAATCCTTGAAG 60.164 44.000 0.00 0.00 0.00 3.02
395 417 2.576191 TGGCAAAGCTGTACCTAATCCT 59.424 45.455 0.00 0.00 0.00 3.24
402 424 3.831715 CTTTACTGGCAAAGCTGTACC 57.168 47.619 0.00 0.00 0.00 3.34
484 508 4.827304 AACTCAAAGCAGAGCTCTTTTC 57.173 40.909 15.27 6.39 38.25 2.29
493 517 6.680810 CATGGTTTCATTAACTCAAAGCAGA 58.319 36.000 11.14 0.00 39.97 4.26
514 538 4.067192 TGATCGATGTAATTCCCAGCATG 58.933 43.478 0.54 0.00 0.00 4.06
515 539 4.356405 TGATCGATGTAATTCCCAGCAT 57.644 40.909 0.54 0.00 0.00 3.79
516 540 3.836365 TGATCGATGTAATTCCCAGCA 57.164 42.857 0.54 0.00 0.00 4.41
517 541 3.876914 TGTTGATCGATGTAATTCCCAGC 59.123 43.478 0.54 0.00 0.00 4.85
518 542 7.912056 ATATGTTGATCGATGTAATTCCCAG 57.088 36.000 0.54 0.00 0.00 4.45
519 543 9.214957 GTAATATGTTGATCGATGTAATTCCCA 57.785 33.333 0.54 0.00 0.00 4.37
520 544 9.214957 TGTAATATGTTGATCGATGTAATTCCC 57.785 33.333 0.54 0.00 0.00 3.97
541 565 7.647715 GCACTGTGTATTTGTTCTTGTTGTAAT 59.352 33.333 9.86 0.00 0.00 1.89
561 589 3.134458 GCAGAGTTTCTGTAAGCACTGT 58.866 45.455 7.80 0.00 45.94 3.55
562 590 3.397482 AGCAGAGTTTCTGTAAGCACTG 58.603 45.455 7.80 0.00 45.94 3.66
563 591 3.760580 AGCAGAGTTTCTGTAAGCACT 57.239 42.857 7.80 0.00 45.94 4.40
578 606 3.485394 TGGCTTTGACAATGTTAGCAGA 58.515 40.909 14.67 2.45 33.60 4.26
582 610 6.446781 AGATGATGGCTTTGACAATGTTAG 57.553 37.500 3.32 0.00 0.00 2.34
584 612 5.126061 GGTAGATGATGGCTTTGACAATGTT 59.874 40.000 3.32 0.00 0.00 2.71
585 613 4.641989 GGTAGATGATGGCTTTGACAATGT 59.358 41.667 3.32 0.00 0.00 2.71
586 614 4.260907 CGGTAGATGATGGCTTTGACAATG 60.261 45.833 0.00 0.00 0.00 2.82
587 615 3.879295 CGGTAGATGATGGCTTTGACAAT 59.121 43.478 0.00 0.00 0.00 2.71
588 616 3.270027 CGGTAGATGATGGCTTTGACAA 58.730 45.455 0.00 0.00 0.00 3.18
589 617 2.419990 CCGGTAGATGATGGCTTTGACA 60.420 50.000 0.00 0.00 0.00 3.58
590 618 2.213499 CCGGTAGATGATGGCTTTGAC 58.787 52.381 0.00 0.00 0.00 3.18
591 619 1.837439 ACCGGTAGATGATGGCTTTGA 59.163 47.619 4.49 0.00 0.00 2.69
592 620 1.942657 CACCGGTAGATGATGGCTTTG 59.057 52.381 6.87 0.00 0.00 2.77
593 621 1.747206 GCACCGGTAGATGATGGCTTT 60.747 52.381 6.87 0.00 0.00 3.51
594 622 0.179045 GCACCGGTAGATGATGGCTT 60.179 55.000 6.87 0.00 0.00 4.35
595 623 1.337384 TGCACCGGTAGATGATGGCT 61.337 55.000 6.87 0.00 0.00 4.75
596 624 0.463654 TTGCACCGGTAGATGATGGC 60.464 55.000 6.87 4.20 0.00 4.40
597 625 1.299541 GTTGCACCGGTAGATGATGG 58.700 55.000 6.87 0.00 0.00 3.51
598 626 2.022764 TGTTGCACCGGTAGATGATG 57.977 50.000 6.87 0.00 0.00 3.07
599 627 2.170397 TGATGTTGCACCGGTAGATGAT 59.830 45.455 6.87 0.00 0.00 2.45
600 628 1.552792 TGATGTTGCACCGGTAGATGA 59.447 47.619 6.87 0.00 0.00 2.92
601 629 1.665679 GTGATGTTGCACCGGTAGATG 59.334 52.381 6.87 0.00 32.68 2.90
602 630 2.024176 GTGATGTTGCACCGGTAGAT 57.976 50.000 6.87 0.00 32.68 1.98
603 631 3.525619 GTGATGTTGCACCGGTAGA 57.474 52.632 6.87 0.00 32.68 2.59
610 638 3.059166 GGTTTCATTGGTGATGTTGCAC 58.941 45.455 0.00 0.00 37.06 4.57
611 639 2.964464 AGGTTTCATTGGTGATGTTGCA 59.036 40.909 0.00 0.00 37.06 4.08
612 640 3.665745 AGGTTTCATTGGTGATGTTGC 57.334 42.857 0.00 0.00 37.06 4.17
613 641 5.458041 AGAAGGTTTCATTGGTGATGTTG 57.542 39.130 0.00 0.00 37.06 3.33
614 642 6.542821 TCTAGAAGGTTTCATTGGTGATGTT 58.457 36.000 0.00 0.00 37.06 2.71
615 643 6.126863 TCTAGAAGGTTTCATTGGTGATGT 57.873 37.500 0.00 0.00 37.06 3.06
616 644 5.065731 GCTCTAGAAGGTTTCATTGGTGATG 59.934 44.000 0.00 0.00 37.08 3.07
617 645 5.189180 GCTCTAGAAGGTTTCATTGGTGAT 58.811 41.667 0.00 0.00 33.56 3.06
618 646 4.565652 GGCTCTAGAAGGTTTCATTGGTGA 60.566 45.833 0.00 0.00 0.00 4.02
619 647 3.691609 GGCTCTAGAAGGTTTCATTGGTG 59.308 47.826 0.00 0.00 0.00 4.17
620 648 3.619979 CGGCTCTAGAAGGTTTCATTGGT 60.620 47.826 0.00 0.00 0.00 3.67
621 649 2.939103 CGGCTCTAGAAGGTTTCATTGG 59.061 50.000 0.00 0.00 0.00 3.16
622 650 2.352960 GCGGCTCTAGAAGGTTTCATTG 59.647 50.000 0.00 0.00 0.00 2.82
623 651 2.633488 GCGGCTCTAGAAGGTTTCATT 58.367 47.619 0.00 0.00 0.00 2.57
624 652 1.134371 GGCGGCTCTAGAAGGTTTCAT 60.134 52.381 0.00 0.00 0.00 2.57
625 653 0.249398 GGCGGCTCTAGAAGGTTTCA 59.751 55.000 0.00 0.00 0.00 2.69
626 654 0.537653 AGGCGGCTCTAGAAGGTTTC 59.462 55.000 5.25 0.00 0.00 2.78
627 655 0.250513 CAGGCGGCTCTAGAAGGTTT 59.749 55.000 9.32 0.00 0.00 3.27
628 656 1.617947 CCAGGCGGCTCTAGAAGGTT 61.618 60.000 9.32 0.00 0.00 3.50
629 657 2.060980 CCAGGCGGCTCTAGAAGGT 61.061 63.158 9.32 0.00 0.00 3.50
630 658 2.060980 ACCAGGCGGCTCTAGAAGG 61.061 63.158 9.32 9.10 34.57 3.46
631 659 1.142748 CACCAGGCGGCTCTAGAAG 59.857 63.158 9.32 0.00 34.57 2.85
632 660 3.019003 GCACCAGGCGGCTCTAGAA 62.019 63.158 9.32 0.00 34.57 2.10
633 661 3.461773 GCACCAGGCGGCTCTAGA 61.462 66.667 9.32 0.00 34.57 2.43
642 670 2.507110 TAGCTTCTGACGCACCAGGC 62.507 60.000 8.91 0.36 39.90 4.85
643 671 0.176680 ATAGCTTCTGACGCACCAGG 59.823 55.000 8.91 0.00 34.99 4.45
644 672 1.284657 CATAGCTTCTGACGCACCAG 58.715 55.000 8.91 0.00 35.55 4.00
645 673 0.108186 CCATAGCTTCTGACGCACCA 60.108 55.000 8.91 0.00 0.00 4.17
646 674 0.811616 CCCATAGCTTCTGACGCACC 60.812 60.000 8.91 0.00 0.00 5.01
647 675 0.811616 CCCCATAGCTTCTGACGCAC 60.812 60.000 8.91 0.00 0.00 5.34
648 676 1.264749 ACCCCATAGCTTCTGACGCA 61.265 55.000 8.91 0.00 0.00 5.24
649 677 0.530870 GACCCCATAGCTTCTGACGC 60.531 60.000 0.00 0.00 0.00 5.19
650 678 0.249073 CGACCCCATAGCTTCTGACG 60.249 60.000 0.00 0.00 0.00 4.35
651 679 0.530870 GCGACCCCATAGCTTCTGAC 60.531 60.000 0.00 0.00 0.00 3.51
652 680 0.687757 AGCGACCCCATAGCTTCTGA 60.688 55.000 0.00 0.00 35.42 3.27
653 681 0.179000 AAGCGACCCCATAGCTTCTG 59.821 55.000 0.00 0.00 45.14 3.02
654 682 1.689273 CTAAGCGACCCCATAGCTTCT 59.311 52.381 5.14 0.00 45.14 2.85
655 683 1.687123 TCTAAGCGACCCCATAGCTTC 59.313 52.381 5.14 0.00 45.14 3.86
657 685 1.041437 GTCTAAGCGACCCCATAGCT 58.959 55.000 0.00 0.00 41.72 3.32
658 686 3.590127 GTCTAAGCGACCCCATAGC 57.410 57.895 0.00 0.00 36.62 2.97
666 694 4.571176 CCTTAAAATCCTGGTCTAAGCGAC 59.429 45.833 0.00 0.00 42.07 5.19
667 695 4.383770 CCCTTAAAATCCTGGTCTAAGCGA 60.384 45.833 0.00 0.00 0.00 4.93
668 696 3.877508 CCCTTAAAATCCTGGTCTAAGCG 59.122 47.826 0.00 0.00 0.00 4.68
669 697 4.640647 CACCCTTAAAATCCTGGTCTAAGC 59.359 45.833 0.00 0.00 0.00 3.09
670 698 5.816682 ACACCCTTAAAATCCTGGTCTAAG 58.183 41.667 0.00 0.00 0.00 2.18
671 699 5.853572 ACACCCTTAAAATCCTGGTCTAA 57.146 39.130 0.00 0.00 0.00 2.10
672 700 5.853572 AACACCCTTAAAATCCTGGTCTA 57.146 39.130 0.00 0.00 0.00 2.59
673 701 4.741928 AACACCCTTAAAATCCTGGTCT 57.258 40.909 0.00 0.00 0.00 3.85
674 702 6.904463 TTTAACACCCTTAAAATCCTGGTC 57.096 37.500 0.00 0.00 0.00 4.02
675 703 6.439375 GGATTTAACACCCTTAAAATCCTGGT 59.561 38.462 15.20 0.00 0.00 4.00
676 704 6.439058 TGGATTTAACACCCTTAAAATCCTGG 59.561 38.462 20.43 0.00 31.04 4.45
677 705 7.475137 TGGATTTAACACCCTTAAAATCCTG 57.525 36.000 20.43 0.00 31.04 3.86
678 706 7.898636 TCATGGATTTAACACCCTTAAAATCCT 59.101 33.333 20.43 8.57 31.04 3.24
679 707 8.073467 TCATGGATTTAACACCCTTAAAATCC 57.927 34.615 15.49 15.49 0.00 3.01
686 714 9.492730 AAAGATATTCATGGATTTAACACCCTT 57.507 29.630 0.00 0.00 0.00 3.95
752 780 9.528018 CAAATTTGAAGAAGGTTAGCAAGTTAA 57.472 29.630 13.08 0.00 0.00 2.01
755 783 5.985530 GCAAATTTGAAGAAGGTTAGCAAGT 59.014 36.000 22.31 0.00 0.00 3.16
759 787 6.843069 TTTGCAAATTTGAAGAAGGTTAGC 57.157 33.333 22.31 2.19 0.00 3.09
830 858 9.423061 CCCCATTTTTATCTTAGACAAAGTTTG 57.577 33.333 14.13 14.13 36.51 2.93
831 859 9.154632 ACCCCATTTTTATCTTAGACAAAGTTT 57.845 29.630 0.00 0.00 36.51 2.66
832 860 8.721133 ACCCCATTTTTATCTTAGACAAAGTT 57.279 30.769 0.00 0.00 36.51 2.66
833 861 9.462606 CTACCCCATTTTTATCTTAGACAAAGT 57.537 33.333 0.00 0.00 36.51 2.66
834 862 9.681062 TCTACCCCATTTTTATCTTAGACAAAG 57.319 33.333 0.00 0.00 36.45 2.77
836 864 9.627123 CATCTACCCCATTTTTATCTTAGACAA 57.373 33.333 0.00 0.00 0.00 3.18
837 865 7.719633 GCATCTACCCCATTTTTATCTTAGACA 59.280 37.037 0.00 0.00 0.00 3.41
838 866 7.719633 TGCATCTACCCCATTTTTATCTTAGAC 59.280 37.037 0.00 0.00 0.00 2.59
839 867 7.719633 GTGCATCTACCCCATTTTTATCTTAGA 59.280 37.037 0.00 0.00 0.00 2.10
840 868 7.040409 GGTGCATCTACCCCATTTTTATCTTAG 60.040 40.741 0.00 0.00 34.56 2.18
841 869 6.775629 GGTGCATCTACCCCATTTTTATCTTA 59.224 38.462 0.00 0.00 34.56 2.10
842 870 5.598417 GGTGCATCTACCCCATTTTTATCTT 59.402 40.000 0.00 0.00 34.56 2.40
843 871 5.140454 GGTGCATCTACCCCATTTTTATCT 58.860 41.667 0.00 0.00 34.56 1.98
844 872 4.023193 CGGTGCATCTACCCCATTTTTATC 60.023 45.833 0.00 0.00 37.44 1.75
845 873 3.888930 CGGTGCATCTACCCCATTTTTAT 59.111 43.478 0.00 0.00 37.44 1.40
846 874 3.283751 CGGTGCATCTACCCCATTTTTA 58.716 45.455 0.00 0.00 37.44 1.52
847 875 2.099405 CGGTGCATCTACCCCATTTTT 58.901 47.619 0.00 0.00 37.44 1.94
848 876 1.684869 CCGGTGCATCTACCCCATTTT 60.685 52.381 0.00 0.00 37.44 1.82
849 877 0.106719 CCGGTGCATCTACCCCATTT 60.107 55.000 0.00 0.00 37.44 2.32
862 890 4.329545 TGCTGAGTTCCCCGGTGC 62.330 66.667 0.00 0.00 0.00 5.01
864 892 3.637273 GGTGCTGAGTTCCCCGGT 61.637 66.667 0.00 0.00 0.00 5.28
865 893 4.410400 GGGTGCTGAGTTCCCCGG 62.410 72.222 0.00 0.00 35.52 5.73
869 897 0.534203 TTCAACGGGTGCTGAGTTCC 60.534 55.000 0.00 0.00 0.00 3.62
870 898 0.868406 CTTCAACGGGTGCTGAGTTC 59.132 55.000 0.00 0.00 0.00 3.01
871 899 1.166531 GCTTCAACGGGTGCTGAGTT 61.167 55.000 0.00 0.00 0.00 3.01
874 902 2.828868 AGCTTCAACGGGTGCTGA 59.171 55.556 0.00 0.00 34.19 4.26
875 903 2.949106 CAGCTTCAACGGGTGCTG 59.051 61.111 0.00 0.00 45.15 4.41
900 990 7.257722 TGAACTGAAACCAAGAAAATCTGAAC 58.742 34.615 0.00 0.00 0.00 3.18
911 1001 9.965824 AACATTTTATACTGAACTGAAACCAAG 57.034 29.630 0.00 0.00 0.00 3.61
969 1059 9.974980 TCTTCTTTCGGTGCTTTATTTTAAATT 57.025 25.926 0.00 0.00 0.00 1.82
985 1075 4.731961 CGATTGCATTTGATCTTCTTTCGG 59.268 41.667 0.00 0.00 0.00 4.30
992 1082 3.488047 CCTTCGCGATTGCATTTGATCTT 60.488 43.478 10.88 0.00 42.97 2.40
1007 1097 0.442699 GCAGTTCCTAAACCTTCGCG 59.557 55.000 0.00 0.00 35.92 5.87
1045 1135 0.670162 CCCTGAACTTGTGCCTGTTG 59.330 55.000 0.00 0.00 0.00 3.33
1076 1167 5.775686 CAGCAGATTTGGATGAACTTGAAA 58.224 37.500 0.00 0.00 0.00 2.69
1201 1310 4.080863 AGTCAGTTGTCTTTCTGTGTCCTT 60.081 41.667 0.00 0.00 33.89 3.36
1220 1330 0.681733 GTCTCTGGGCTCACAAGTCA 59.318 55.000 0.00 0.00 0.00 3.41
1453 1791 2.034879 CGGCAAGACCATCACGCTT 61.035 57.895 0.00 0.00 39.03 4.68
1486 1824 1.771255 AGGGGTGGTATGCAGATCTTC 59.229 52.381 0.00 0.00 0.00 2.87
2226 2564 1.200716 TCGGACACCATAGACAACGTC 59.799 52.381 0.00 0.00 0.00 4.34
2235 2573 2.232941 GGTTGAGTCTTCGGACACCATA 59.767 50.000 0.00 0.00 46.67 2.74
2247 2585 0.889638 TCACGCTCGAGGTTGAGTCT 60.890 55.000 15.58 0.00 38.28 3.24
2259 2597 2.456119 CGGCAAGACCATCACGCTC 61.456 63.158 0.00 0.00 39.03 5.03
2262 2600 2.047274 ACCGGCAAGACCATCACG 60.047 61.111 0.00 0.00 39.03 4.35
2292 3920 1.667724 CGTGGTGGAATGCAGATCTTC 59.332 52.381 0.00 0.00 0.00 2.87


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.